Publications from the Kirkegaard Laboratory
(in reverse chronological order)

Links to the PubMed citation and a PDF version follow each citation.

Burgeon TB, Jenkins JA, Dietz SB, Spagnolo JF, Kirkegaard K.
Bypass supression of small-plaque phenotypes by a mutation in poliovirus 2A that enhances apoptosis.
J Virol. 2009 Oct;83(19):10129-39.
PMID: 19625405
[PubMed] [PDF]

Taylor MP, Burgeon TB, Kirkegaard K, Jackson WT.
Role of microtubules in extracellular release of poliovirus.
J Virol. 2009 Jul;83(13):6599-609.
PMID: 19369338
[PubMed] [PDF]

Kirkegaard K.
Subversion of cellular autophagy pathway by viruses.
Curr Top Microbiol Immunol. 2009;335:323-33.
PMID: 19802573
[PubMed] [PDF]

Taylor MP, Kirkegaard K.
Potential Subversion of autophagosomal pathway by Picornaviruses.
Authophagy. 2007 Dec;4(3).
PMID: 18094610
[PubMed] [PDF]

Taylor MP, Kirkegaard K.
Modification of cellular autophagy protein LC3 by poliovirus.
J Virol. 2007 Nov;81(22):12543-53.
PMID: 17804493
[PubMed] [PDF]

Beske O, Reichelt M, Taylor MP, Kirkegaard K, Andino R.
Poliovirus infection blocks ERGIC-to-Golgi trafficking and induces microtubule-independent disruption of the Golgi complex.
J Cell Sci. 2007 Sep;120(18):3207-18.
PMID: 17711878
[PubMed] [PDF]

Richards OC, Spagnolo JF, Lyle JM, Vleck SE, Kuchta RD, Kirkegaard K.
Intramolecular and intermolecular uridylylation by poliovirus RNA-dependent RNA polymerase.
J Virol. 2006 Aug;80(15):7405-15.
PMID: 16840321
[PubMed] [PDF]

Pfeiffer JK, Kirkegaard K.
Bottleneck-mediated quasispecies restriction during spread of an RNA virus from inoculation site to brain.
Proc Natl Acad Sci U S A. 2006 Apr 4;103(14):5520-5. Epub 2006 Mar 27.
PMID: 16567621
[PubMed] [PDF]

Tellez AB, Crowder S, Spagnolo JF, Thompson AA, Peersen OB, Brutlag DL, Kirkegaard K.
Nucleotide channel of RNA-dependent RNA polymerase used for intermolecular uridylylation of protein primer.
J Mol Biol. 2006 Mar 24;357(2):665-75. Epub 2006 Jan 5.
PMID: 16427083
[PubMed] [PDF]

Kirkegaard K, Jackson WT.
Topology of double-membraned vesicles and the opportunity for non-lytic release of cytoplasm.
Autophagy. 2005 Oct;1(3):182-4. Epub 2005 Oct 30.
PMID: 16874042
[PubMed] [PDF]

Pfeiffer JK, Kirkegaard K.
Increased fidelity reduces poliovirus fitness and virulence under selective pressure in mice.
PLoS Pathog. 2005 Oct;1(2):e11. Epub 2005 Oct 7.
PMID: 16220146
[PubMed] [PDF]

Crowder S, Kirkegaard K.
Trans-dominant inhibition of RNA viral replication can slow growth of drug-resistant viruses.
Nat Genet. 2005 Jul;37(7):701-9. Epub 2005 Jun 19.
PMID: 15965477
[PubMed] [PDF]

Choe SS, Dodd DA, Kirkegaard K.
Inhibition of cellular protein secretion by picornaviral 3A proteins.
Virology. 2005 Jun 20;337(1):18-29.
PMID: 15914217
[PubMed] [PDF]

Boerner JE, Lyle JM, Daijogo S, Semler BL, Schultz SC, Kirkegaard K, Richards OC.
Allosteric effects of ligands and mutations on poliovirus RNA-dependent RNA polymerase.
J Virol. 2005 Jun;79(12):7803-11.
PMID: 15919933
[PubMed] [PDF]

Jackson WT, Giddings TH Jr, Taylor MP, Mulinyawe S, Rabinovitch M, Kopito RR, Kirkegaard K.
Subversion of cellular autophagosomal machinery by RNA viruses.
PLoS Biol. 2005 May;3(5):e156. Epub 2005 Apr 26.
PMID: 15884975
[PubMed] [PDF]

Pfeiffer JK, Kirkegaard K.
Ribavirin resistance in hepatitis C virus replicon-containing cell lines conferred by changes in the cell line or mutations in the replicon RNA.
J Virol. 2005 Feb;79(4):2346-55.
PMID: 15681435
[PubMed] [PDF]

Crowder S, Kirkegaard K.
Complete three-dimensional structures of picornaviral RNA-dependent RNA polymerases.
Structure. 2004 Aug;12(8):1336-9. No abstract available.
PMID: 15296725
[PubMed] [PDF]

Choe SS, Kirkegaard K.
Intracellular topology and epitope shielding of poliovirus 3A protein.
J Virol. 2004 Jun;78(11):5973-82.
PMID: 15140995
[PubMed] [PDF]

Kirkegaard K, Taylor MP, Jackson WT.
Cellular autophagy: surrender, avoidance and subversion by microorganisms.
Nat Rev Microbiol. 2004 Apr;2(4):301-14. Review. No abstract available.
PMID: 15031729
[PubMed] [PDF]

Konan KV, Giddings TH Jr, Ikeda M, Li K, Lemon SM, Kirkegaard K.
Nonstructural protein precursor NS4A/B from hepatitis C virus alters function and ultrastructure of host secretory apparatus.
J Virol. 2003 Jul;77(14):7843-55.
PMID: 12829824
[PubMed] [PDF]

Pfeiffer JK, Kirkegaard K.
A single mutation in poliovirus RNA-dependent RNA polymerase confers resistance to mutagenic nucleotide analogs via increased fidelity.
Proc Natl Acad Sci U S A. 2003 Jun 10;100(12):7289-94. Epub 2003 May 16.
PMID: 12754380
[PubMed] [PDF]

Lyle JM, Bullitt E, Bienz K, Kirkegaard K.
Visualization and functional analysis of RNA-dependent RNA polymerase lattices.
Science. 2002 Jun 21;296(5576):2218-22.
PMID: 12077417
[PubMed] [PDF]

Lyle JM, Clewell A, Richmond K, Richards OC, Hope DA, Schultz SC, Kirkegaard K.
Similar structural basis for membrane localization and protein priming by an RNA-dependent RNA polymerase.
J Biol Chem. 2002 May 3;277(18):16324-31. Epub 2002 Feb 27.
PMID: 11877407
[PubMed] [PDF]

Wang QM, Hockman MA, Staschke K, Johnson RB, Case KA, Lu J, Parsons S, Zhang F, Rathnachalam R, Kirkegaard K, Colacino JM.
Oligomerization and cooperative RNA synthesis activity of hepatitis C virus RNA-dependent RNA polymerase.
J Virol. 2002 Apr;76(8):3865-72.
PMID: 11907226
[PubMed] [PDF]

Schneider R, Agol VI, Andino R, Bayard F, Cavener DR, Chappell SA, Chen JJ, Darlix JL, Dasgupta A, Donze O, Duncan R, Elroy-Stein O, Farabaugh PJ, Filipowicz W, Gale M Jr, Gehrke L, Goldman E, Groner Y, Harford JB, Hatzglou M, He B, Hellen CU, Hentze MW, Hershey J, Hershey P, Hohn T, Holcik M, Hunter CP, Igarashi K, Jackson R, Jagus R, Jefferson LS, Joshi B, Kaempfer R, Katze M, Kaufman RJ, Kiledjian M, Kimball SR, Kimchi A, Kirkegaard K, Koromilas AE, Krug RM, Kruys V, Lamphear BJ, Lemon S, Lloyd RE, Maquat LE, Martinez-Salas E, Mathews MB, Mauro VP, Miyamoto S, Mohr I, Morris DR, Moss EG, Nakashima N, Palmenberg A, Parkin NT, Pe'ery T, Pelletier J, Peltz S, Pestova TV, Pilipenko EV, Prats AC, Racaniello V, Read GS, Rhoads RE, Richter JD, Rivera-Pomar R, Rouault T, Sachs A, Sarnow P, Scheper GC, Schiff L, Schoenberg DR, Semler BL, Siddiqui A, Skern T, Sonenberg N, Tahara SM, Thomas AA, Toulme JJ, Wilusz J, Wimmer E, Witherell G, Wormington M.
New ways of initiating translation in eukaryotes.
Mol Cell Biol. 2001 Dec;21(23):8238-46. No abstract available.
PMID: 11710333
[PubMed] [PDF]

Dodd DA, Giddings TH Jr, Kirkegaard K.
Poliovirus 3A protein limits interleukin-6 (IL-6), IL-8, and beta interferon secretion during viral infection.
J Virol. 2001 Sep;75(17):8158-65.
PMID: 11483761
[PubMed] [PDF]

Hobson SD, Rosenblum ES, Richards OC, Richmond K, Kirkegaard K, Schultz SC.
Oligomeric structures of poliovirus polymerase are important for function.
EMBO J. 2001 Mar 1;20(5):1153-63.
PMID: 11230138
[PubMed] [PDF]

Deitz SB, Dodd DA, Cooper S, Parham P, Kirkegaard K.
MHC I-dependent antigen presentation is inhibited by poliovirus protein 3A.
Proc Natl Acad Sci U S A. 2000 Dec 5;97(25):13790-5.
PMID: 11095746
[PubMed] [PDF]

Suhy DA, Giddings TH Jr, Kirkegaard K.
Remodeling the endoplasmic reticulum by poliovirus infection and by individual viral proteins: an autophagy-like origin for virus-induced vesicles.
J Virol. 2000 Oct;74(19):8953-65.
PMID: 10982339
[PubMed] [PDF]

Nugent CI, Johnson KL, Sarnow P, Kirkegaard K.
Functional coupling between replication and packaging of poliovirus replicon RNA.
J Virol. 1999 Jan;73(1):427-35.
PMID: 9847348
[PubMed] [PDF]

Xiang W, Cuconati A, Hope D, Kirkegaard K, Wimmer E.
Complete protein linkage map of poliovirus P3 proteins: interaction of polymerase 3Dpol with VPg and with genetic variants of 3AB.
J Virol. 1998 Aug;72(8):6732-41.
PMID: 9658121
[PubMed] [PDF]

McBride AE, Taylor SJ, Shalloway D, Kirkegaard K.
KH domain integrity is required for wild-type localization of Sam68.
Exp Cell Res. 1998 May 25;241(1):84-95.
PMID: 9633516
[PubMed] [PDF]

Beckman MT, Kirkegaard K.
Site size of cooperative single-stranded RNA binding by poliovirus RNA-dependent RNA polymerase.
J Biol Chem. 1998 Mar 20;273(12):6724-30.
PMID: 9506971
[PubMed] [PDF]

Doedens JR, Giddings TH Jr, Kirkegaard K.
Inhibition of endoplasmic reticulum-to-Golgi traffic by poliovirus protein 3A: genetic and ultrastructural analysis.
J Virol. 1997 Dec;71(12):9054-64.
PMID: 9371562
[PubMed] [PDF]

Hope DA, Diamond SE, Kirkegaard K.
Genetic dissection of interaction between poliovirus 3D polymerase and viral protein 3AB.
J Virol. 1997 Dec;71(12):9490-8.
PMID: 9371611
[PubMed] [PDF]

Tang RS, Barton DJ, Flanegan JB, Kirkegaard K.
Poliovirus RNA recombination in cell-free extracts.
RNA. 1997 Jun;3(6):624-33.
PMID: 9174097
[PubMed] [PDF]

Van kuppeveld FJ, Melchers WJ, Kirkegaard K, Doedens JR.
Structure-function analysis of coxsackie B3 virus protein 2B.
Virology. 1997 Jan 6;227(1):111-8.
PMID: 9007064
[PubMed] [PDF]

Schlegel A, Giddings TH Jr, Ladinsky MS, Kirkegaard K.
Cellular origin and ultrastructure of membranes induced during poliovirus infection.
J Virol. 1996 Oct;70(10):6576-88.
PMID: 8794292
[PubMed] [PDF]

McBride AE, Schlegel A, Kirkegaard K.
Human protein Sam68 relocalization and interaction with poliovirus RNA polymerase in infected cells.
Proc Natl Acad Sci U S A. 1996 Mar 19;93(6):2296-301.
PMID: 8637866
[PubMed] [PDF]

Pata JD, Schultz SC, Kirkegaard K.
Functional oligomerization of poliovirus RNA-dependent RNA polymerase.
RNA. 1995 Jul;1(5):466-77.
PMID: 7489508
[PubMed] [PDF]

Doedens JR, Kirkegaard K.
Inhibition of cellular protein secretion by poliovirus proteins 2B and 3A.
EMBO J. 1995 Mar 1;14(5):894-907.
PMID: 7889939
[PubMed] [PDF]

Nugent CI, Kirkegaard K.
RNA binding properties of poliovirus subviral particles.
J Virol. 1995 Jan;69(1):13-22.
PMID: 7983702
[PubMed] [PDF]

Novak JE, Kirkegaard K.
Coupling between genome translation and replication in an RNA virus.
Genes Dev. 1994 Jul 15;8(14):1726-37.
PMID: 7958852
[PubMed] [PDF]

Cooper G, Borish L, Mascali J, Watson C, Kirkegaard K, Morrissey L, Tedesco JL.
The photocatalytic production of organic-free water for molecular biological and pharmaceutical applications.
J Biotechnol. 1994 Mar 31;33(2):123-33.
PMID: 7764728
[PubMed] [PDF]

Diamond SE, Kirkegaard K.
Clustered charged-to-alanine mutagenesis of poliovirus RNA-dependent RNA polymerase yields multiple temperature-sensitive mutants defective in RNA synthesis.
J Virol. 1994 Feb;68(2):863-76.
PMID: 8289389
[PubMed] [PDF]

Doedens J, Maynell LA, Klymkowsky MW, Kirkegaard K.
Secretory pathway function, but not cytoskeletal integrity, is required in poliovirus infection.
Arch Virol Suppl. 1994;9:159-72.
PMID: 8032247
[PubMed] [PDF]

Jarvis TC, Kirkegaard K.
Poliovirus RNA recombination: mechanistic studies in the absence of selection.
EMBO J. 1992 Aug;11(8):3135-45.
PMID: 1379178
[PubMed] [PDF]

Maynell LA, Kirkegaard K, Klymkowsky MW.
Inhibition of poliovirus RNA synthesis by brefeldin A.
J Virol. 1992 Apr;66(4):1985-94.
PMID: 1312615
[PubMed] [PDF]

Kirkegaard K.
Genetic analysis of picornaviruses.
Curr Opin Genet Dev. 1992 Feb;2(1):64-70. Review.
PMID: 1321679
[PubMed] [PDF]

Russell PJ, Hambidge SJ, Kirkegaard K.
Direct introduction and transient expression of capped and non-capped RNA in Saccharomyces cerevisiae.
Nucleic Acids Res. 1991 Sep 25;19(18):4949-53.
PMID: 1656383
[PubMed] [PDF]

Morrissey LM, Kirkegaard K.
Regulation of a double-stranded RNA modification activity in human cells.
Mol Cell Biol. 1991 Jul;11(7):3719-25.
PMID: 1646394
[PubMed] [PDF]

Novak JE, Kirkegaard K.
Improved method for detecting poliovirus negative strands used to demonstrate specificity of positive-strand encapsidation and the ratio of positive to negative strands in infected cells.
J Virol. 1991 Jun;65(6):3384-7.
PMID: 1851886
[PubMed] [PDF]

Jarvis TC, Kirkegaard K.
The polymerase in its labyrinth: mechanisms and implications of RNA recombination.
Trends Genet. 1991 Jun;7(6):186-91. Review.
PMID: 1712518
[PubMed] [PDF]

Pata J, Kirkegaard K.
Poliovirus RNA recombination.
SAAS Bull Biochem Biotechnol. 1991 Jan;4:20-1.
PMID: 1369321
[PubMed] [PDF]

Compton SR, Nelsen B, Kirkegaard K.
Temperature-sensitive poliovirus mutant fails to cleave VP0 and accumulates provirions.
J Virol. 1990 Sep;64(9):4067-75.
PMID: 2166805
[PubMed] [PDF]

Kirkegaard K.
Mutations in VP1 of poliovirus specifically affect both encapsidation and release of viral RNA.
J Virol. 1990 Jan;64(1):195-206.
PMID: 2152812
[PubMed] [PDF]

Kirkegaard K, Nelsen B.
Conditional poliovirus mutants made by random deletion mutagenesis of infectious cDNA.
J Virol. 1990 Jan;64(1):185-94.
PMID: 2152811
[PubMed] [PDF]

Kirkegaard K, Baltimore D.
The mechanism of RNA recombination in poliovirus.
Cell. 1986 Nov 7;47(3):433-43.
PMID: 3021340
[PubMed] [PDF]

Kirkegaard K, Wang JC.
Bacterial DNA topoisomerase I can relax positively supercoiled DNA containing a single-stranded loop.
J Mol Biol. 1985 Oct 5;185(3):625-37.
PMID: 2997454
[PubMed] [PDF]

Spassky A, Kirkegaard K, Buc H.
Changes in the DNA structure of the lac UV5 promoter during formation of an open complex with Escherichia coli RNA polymerase.
Biochemistry. 1985 May 21;24(11):2723-31.
PMID: 3896305
[PubMed] [PDF]

Kirkegaard K, Pflugfelder G, Wang JC.
The cleavage of DNA by type-I DNA topoisomerases.
Cold Spring Harb Symp Quant Biol. 1984;49:411-9. No abstract available.
PMID: 6099250
[PubMed] [PDF]

Kirkegaard K, Buc H, Spassky A, Wang JC.
Mapping of single-stranded regions in duplex DNA at the sequence level: single-strand-specific cytosine methylation in RNA polymerase-promoter complexes.
Proc Natl Acad Sci U S A. 1983 May;80(9):2544-8.
PMID: 6573669
[PubMed] [PDF]

Kirkegaard K, Wang JC.
Mapping the topography of DNA wrapped around gyrase by nucleolytic and chemical probing of complexes of unique DNA sequences.
Cell. 1981 Mar;23(3):721-9.
PMID: 6261954
[PubMed] [PDF]

Wang JC, Kirkegaard K.
DNA topoisomerases.
Gene Amplif Anal. 1981;2:455-73. Review. No abstract available.
PMID: 6101057
[PubMed] [PDF]

Tse YC, Kirkegaard K, Wang JC.
Covalent bonds between protein and DNA. Formation of phosphotyrosine linkage between certain DNA topoisomerases and DNA.
J Biol Chem. 1980 Jun 25;255(12):5560-5. No abstract available.
PMID: 6155377
[PubMed] [PDF]

Kirkegaard K, Wang JC.
Escherichia coli DNA topoisomerase I catalyzed linking of single-stranded rings of complementary base sequences.
Nucleic Acids Res. 1978 Oct;5(10):3811-20. No abstract available.
PMID: 214763
[PubMed] [PDF]

Copyright 2006 - 2007. The Laboratory of Karla Kirkegaard, Ph.D. All rights reserved.